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For now, we have decided not to read and convert Python dictionaries, so the BL user won’t be able to give a dictionary as a parameter value. However, he can use a dictionary if he uses the App locally (see https://icm-institute.atlassian.net/wiki/pages/resumedraft.action?draftId=1562771457).
Python dictionaries are used in app-temporal-filtering to define optionally the parameters of an IIR filter, but also in app-make-epochs to define the threshold values for each type of channel to use to detect bad channels. So, it is important to find a way to make possible to use dictionaries on BL.
Case of a numpy.nd.array
It is impossible to enter a np.nd.array in BL. So we register such parameter as a STRING and ask the user to enter floats separated by a comma: 10, 15, 20. In the config.json, such parameter will be written as:
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{
"param_baseline": "0, None"
} |
To convert it into a tuple, in the Python file we added:
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if isinstance(config['param_baseline'], str): param_baseline = list(map(str, config['param_baseline'].split(', '))) param_baseline = [None if i=='None' else i for i in param_baseline] param_baseline = [float(i) if isinstance(i, str) else i for i in param_baseline] config['param_baseline'] = tuple(param_baseline) |
The first step is to convert it into a list and then convert the elements of the list into the right type. For tuple parameters in which their elements are the same type, there is
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no need to compute the two list comprehensions:
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if isinstance(config['param_tuple_floats'], str): config['param_baseline_tuple_floats'] = list(map(str, config['param_tuple_floats'].split(', '))) config['param_tuple_floats'] = tuple(config['param_tuple_baselinefloats']) |
| Info |
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This parameter is entered the same way as a |
Case of a list of integers/floats or strings
On Brainlife, when we enter a list, we have to use the type STRING and so the list is considered as a string, so they need to be converted.
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{
param_picks_by_channel_types_or_names =: "[0, 2, 1]"
} |
and a list of str:
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{ list_of_strings: "[a, b, c]" } |
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Don’t surround the elements in the list by quotes. |
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If you want to convert it into a list of floats or ints, just replace str in list(map(str, picks.split(', '))) by the type you want.
If the list is empty, the user must enter []. In the Python code it will be converted into an empty list:
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if config['param_extended_proj'] == '[]':
config['param_extended_proj'] = [] |
Cases when a parameter can be two types
When the App is run locally, this configuration is not an issue, but on Brainlife when you define the parameter, it must be either a STRING or NUMBER. So , a NUMBER, a BOOLEAN, or an ENUM.
Case when a parameter is either a str or a float/int
When a parameter can be both a str or a float/ int, we registered it as a STRING on BL, and then we convert it as into a float or int.
But we must be careful: we only want to convert a str into float/int when the App runs on BL. For instance the parameter param_filter_length can be “auto”, a str with the duration in s, or ms, or a int. So to be sure that the conversion into float happens only on Brainlife and only when the user does want to use a float:
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if config['param_filter_length'] != "auto" and config['param_filter_length'].find("s") == -1:
config['param_filter_length'] = int(config['param_filter_length']) |
Case when a parameter is either a str or a bool
When a parameter can be both a str or a bool, we registered it as a STRING or ENUM on BL (either way, it is considered as a str), and then we convert it into a bool.
For instance the parameter param_proj can be “delayed”, or a bool. So, we registered it as an ENUM parameter and convert "True” and “False“ into a bool:
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if config['param_proj'] == "True":
config['param_proj'] = True
elif config['param_proj'] == "False":
config['param_proj'] = False |